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Calls ChIP-seq peaks with MACS3, MACS2, HOMER, or SPP across narrow (TF) and broad (histone) modes. Handles input control matching, fragment-size modeling vs --nomodel, effective genome size, ENCODE-style IDR vs naive overlap, hyper-ChIPable artifacts, and aligner-specific shifts. Use when callin...
Poisson-model peak caller for ChIP-seq/ATAC-seq BAMs. MACS3 callpeak finds enriched regions (TF sites or histone marks) vs input/IgG; outputs BED narrowPeak/broadPeak for motif analysis, annotation, and differential binding. Use narrow peaks for TF ChIP-seq and ATAC-seq; broad for H3K27me3, H3K9m...
ChIP-seq peak calling using MACS3 (or MACS2). Call narrow peaks for transcription factors or broad peaks for histone modifications. Supports input control, fragment size modeling, and various output formats including narrowPeak and broadPeak BED files. Use when calling peaks from ChIP-seq alignme...
ATAC-seq processing with assay QC, MACS3 peak calling, consensus peak matrices, differential accessibility, and motif or footprint follow-up.
Call accessible chromatin regions from ATAC-seq BAM files using MACS3, MACS2, Genrich, or HMMRATAC. Use when identifying open chromatin from aligned ATAC-seq, choosing between point-source vs HMM peak callers, applying ENCODE-style pseudoreplicate IDR, removing blacklist regions, or fixing 501bp ...
Agent skill for Researcher, Data Scientist, published by BIsnake2001. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, Business Intelligence Analyst, published by Rudson-Oliveira. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by Rudson-Oliveira. Project details and file access are provided by the publisher.
Agent skill for Researcher, Clinical Research, Data Scientist, published by Rudson-Oliveira. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by majiayu000. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by FridrichMethod. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by FridrichMethod. Project details and file access are provided by the publisher.
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